Protocol for generating and using human iPSC-derived microglia-containing air-liquid-interface cortical organoid

Marta Cañizares Luna1, Mayte Mars1, Channa E Jakobs1

  • 1Department of Translational Neuroscience, UMC Utrecht Brain Center, University Medical Center Utrecht, Utrecht University, Utrecht 3584 CG, the Netherlands.

STAR Protocols
|July 2, 2025
PubMed

Insights

We developed a protocol for long-term microglia-containing organoid cultures that reduces cell death. This new method supports microglia survival and homeostasis for studying neuroimmune interactions in a 3D brain model.

Area of Science:

  • Neuroscience
  • Immunology
  • Stem Cell Biology

Background:

  • Extended organoid cultures often suffer from necrotic core formation, limiting their utility for studying long-term cellular processes.
  • Microglia, the resident immune cells of the brain, are crucial for neurodevelopment and disease, but their survival in traditional organoid models is challenging.

Purpose of the Study:

  • To present a novel protocol for generating microglia-containing air-liquid-interface cortical organoids (MG-ALI-COs) capable of long-term culture.
  • To overcome limitations of necrotic core formation and enhance microglia survival and homeostasis in 3D brain models.
  • To provide a physiologically relevant platform for investigating human neuroimmune interactions.

Main Methods:

  • Generation of air-liquid-interface cortical organoids (ALI-COs).
  • Integration of macrophage precursors into ALI-COs to generate MG-ALI-COs.
  • Maintenance and long-term culture of MG-ALI-COs.
  • Experimental analyses including immunostaining, imaging, and patch-clamp electrophysiology.

Main Results:

  • The protocol successfully generated long-term MG-ALI-CO cultures.
  • Minimized necrotic core formation, promoting microglia survival and homeostasis.
  • Demonstrated the utility of MG-ALI-COs for various experimental analyses.

Conclusions:

  • The developed MG-ALI-CO model offers a robust system for studying microglia in a 3D, brain-like environment.
  • This model facilitates research into human neuroimmune interactions over extended periods.
  • The protocol addresses key limitations in current organoid technology for neuro-immunological studies.

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